Resources

There are several public resources related to the boostDM framework, each taylored to a specific purpose.

paper

In the In silico saturation mutagenesis of cancer genes [Muiños et al., 2021] paper the boostDM approach has been described, validated and used to analyze the role of background mutation probability in the generation of cancer driver mutations.

website

boostDM website is intended to explore the predictions and explanations resulting from the boostDM pipeline for a collection of models meeting high enough reliability requirements. The website is searchable by cancer gene, tumor type, and mutation coordinates.

pipeline repo

The boostDM pipeline repo is a public BitBucket repo containing the source code for reproducing the pipeline from a public, pre-processed input dataset. The input is supplied as part of the stable source dataset (doi: 10.5281/zenodo.4813082) hosted in Zenodo.

paper analyses repo

boostDM analyses is a public repo containing a collection of scripts and jupyter notebooks to generate the figures displayed in the [Muiños et al., 2021] paper. These scripts feed on the stable source dataset (doi: 10.5281/zenodo.4813082) published in Zenodo.

IntOGen

IntOGen website is intended to explore the landscape of mutations in driver genes after analyzing more than 28,000 tumors. IntOGen is instrumental for boostDM as it provides important annotations used as features in the learning pipeline.

Cancer Genome Interpreter

Cancer Genome Interpreter is a variant interpretation framework for researchers and clinicians that feeds on boostDM outputs for the annotation os single nucleotide variants.